Biological databanks PDF Print E-mail
Written by Nelzo Ereful   
Friday, 28 December 2007
Biological data banks on the web

The web is an excellent storage and retrieval system of databases because it is readily available for the public. Below are some of the major biological databases found on the web. There are other many specialized databases which are quite numerous to list on this page. These databases are changeable and any list provided here would be soon outdated. Besides, there is a tremendous explosion of data on various sequencing projects and so enumeration of these materials is almost impossible. We advise that you look for other biological databases using search engines such as Google.

National Center for Biotechnology Information or NCBI


The National Center for Biotechnology Information or NCBI is arguably the most popular among these databases. It contains several Tools to do sequence analysis, an Entrez interface to do general search queries allowing a researcher to search across all databases, a sequence database called GenBank,Publications database, and other features and capabilities. To introduce to you NCBI and its popular features, click here. We encourage you to explore the NCBI site for further information. An introduction to doing queries is also presented in the succeeding sections.

DNA Data Bank of Japan or DDBJ

DNA Data Bank of Japan or DDBJ is the sole DNA data bank in Japan, which is officially certified to collect DNA sequences from researchers and to issue the internationally recognized accession number to data submitters. DDBJ collects data mainly from Japanese researchers, but also accepts data and issues the accession number to researchers in any other countries. Since DDBJ exchange the collected data with EMBL/EBI and GenBank/NCBI on a daily basis, the three data banks share virtually the same data at any given time. The databank also contains several Tools to do search and sequence analysis.

European Bioinformatics Institute or EBI

The European Bioinformatics Institute (EMBL-EBI), which is part of the European Molecular Biology Laboratory (EMBL) collects, stores and curates all information to allow its efficient retrieval and exploitation. The EMBL-EBI provides freely available biological databases and bioinformatics services to the research community.

Expert Protein Analysis System or ExPaSy

The ExPASy (Expert Protein Analysis System) proteomics server of the Swiss Institute of Bioinformatics (SIB) is dedicated to the analysis of protein sequences and structures as well as 2-D PAGE. It contains protein families and domains databases, enzyme nomenclature database, protein analysis tools, and other features.


RCSB Protein Data Bank or PDB

The Protein Data Bank or PDB provides a variety of tools and resources for studying the structures of biological macromolecules and their relationships to sequence, function, and disease. The site offers tools for browsing, searching, and reporting that utilize the data resulting from ongoing efforts to create a more consistent and comprehensive archive. A narrated tutorial is availalable.

The Institute for Genomic Research or TIGR

The new J. Craig Venter Institute was formed in October 2006 through the merger of several affiliated and legacy organizations-- The Institute for Genomic Research (TIGR) and The Center for the Advancement of Genomics (TCAG), The J. Craig Venter Science Foundation, The Joint Technology Center, and the Institute for Biological Energy Alternatives (IBEA). These organizations have become one large multidisciplinary genomic-focused organization.

TIGR's Genome Projects  is a collection of curated databases containing DNA and protein sequence, gene expression, cellular role, protein family, and taxonomic data for microbes, plants and humans. The site also contains and provides various links to sequencing/annotation and functional crop genomics databases: Wheat Genome , Maize Oligonucleotide Array Project , Rice Genome Annotation , Plant Repeat Database Project , etc. We suggest that you explore the site.

Last Updated ( Wednesday, 16 January 2008 )
< Prev   Next >